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HC-Pro

Euk-Vir

Narcissus_late_season_yellows_virus

HC-Pro__YP_009010960__Narcissus_late_season_yellows_virus__160842

Identity

Accession:
YP_009010960 ↗
Protein ID:
HC-Pro
Kingdom:
euk

Quality

83.0 mean pLDDT

Taxonomy

Orthornavirae› Pisuviricota› Stelpaviricetes› Patatavirales› Potyviridae› Potyvirus› Narcissus_late_season_yellows_virus

TaxID: 160842

Cluster

View cluster (80 members)

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 30-106
PDB
Domain cluster: rep: HC-Pro__YP_009252411__Tobacco_mosqueado_virus__1792583__D31-64_66-104
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2yjkC00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.73 66.0 5.19e-01 100.0% 89.2%
2nn4A00 1.10.287.760 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YqgQ-like 0.71 43.0 4.75e-01 80.5% 75.8%
2gnoA03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.70 50.0 4.58e-01 75.3% 64.0%
4l8iB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.69 63.0 5.52e-01 100.0% 92.9%
2clbA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.68 62.0 4.84e-01 100.0% 91.8%
2d9dA00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.68 60.0 5.68e-01 94.8% 82.0%
4a25B01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.68 62.0 4.81e-01 100.0% 87.6%
3nivC02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.67 60.0 5.14e-01 100.0% 76.6%
2ra1A01 1.20.58.790 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 58.0 5.35e-01 94.8% 90.8%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.67 60.0 5.21e-01 100.0% 92.3%
6fndA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.66 51.0 3.87e-01 93.5% 34.9%
2lseA00 1.20.120.1360 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.65 46.0 4.29e-01 93.5% 57.4%
3edvA02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.65 58.0 4.40e-01 100.0% 53.0%
1rqgA04 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.65 59.0 4.67e-01 100.0% 54.3%
1xzpA02 1.20.120.430 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › tRNA modification GTPase MnmE domain 2 0.64 58.0 4.48e-01 98.7% 72.3%
4kb2A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.64 56.0 5.02e-01 97.4% 89.0%
5o5jT00 1.20.58.110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Ribosomal protein S20 0.64 52.0 5.05e-01 100.0% 82.4%
1ugoA00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.64 58.0 5.34e-01 100.0% 84.8%
8ek4A01 1.20.120.20 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein 0.63 54.0 4.59e-01 98.7% 84.2%
2uubT00 1.20.58.110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Ribosomal protein S20 0.63 51.0 4.73e-01 100.0% 70.7%
1cunA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.62 54.0 4.98e-01 97.4% 92.2%
2fu2A00 1.20.1440.50 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Ta0600-like 0.62 46.0 4.67e-01 96.1% 79.5%
2aj4B03 1.20.1440.340 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.61 50.0 3.97e-01 90.9% 69.1%
3pe0A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.61 54.0 4.96e-01 100.0% 96.0%
4ap2B01 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.61 54.0 4.51e-01 100.0% 90.3%
2yayA02 1.20.1670.10 Mainly Alpha › Up-down Bundle › all-alpha NTP pyrophosphatase › Type II deoxyuridine triphosphatase 0.61 53.0 4.41e-01 97.4% 97.0%
3m3mA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.60 54.0 4.73e-01 100.0% 78.4%
2c5iT00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.60 52.0 4.89e-01 97.4% 92.6%
3bhqA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.60 52.0 3.90e-01 100.0% 71.8%
1dd5A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.59 50.0 4.56e-01 100.0% 90.8%
1s35A02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.59 52.0 4.61e-01 98.7% 89.1%
3ck6C02 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.58 50.0 4.37e-01 97.4% 78.2%
3pe0A02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.57 49.0 4.44e-01 98.7% 87.7%
3o39A00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.57 45.0 4.24e-01 88.3% 90.6%
2vgxB00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.56 49.0 3.95e-01 94.8% 57.9%
3wd6A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.55 48.0 4.24e-01 100.0% 76.3%
3itfA00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.55 46.0 4.09e-01 93.5% 82.0%
4hehA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.54 42.0 4.14e-01 85.7% 79.5%
1np7A02 1.25.40.80 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.53 41.0 3.59e-01 93.5% 55.5%
7eu3E01 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.52 37.0 3.62e-01 76.6% 67.8%
1vdyA00 1.25.40.90 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.52 44.0 3.63e-01 98.7% 52.1%
1rq0A01 6.10.140.160 Special › Helix non-globular › Helix Hairpins › 0.52 39.0 3.86e-01 83.1% 92.8%
3ajfA00 1.20.1440.190 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Tenuivirus movement protein 0.51 41.0 3.92e-01 92.2% 78.3%
ECOD (30)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3277087 192.4.1.0 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) 0.72 55.0 5.06e-01 90.9% 64.2%
3503488 109.4.1.1352 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › EFR3_ARM, EFR3 0.72 50.0 3.23e-01 72.7% 23.4%
5019542 622.4.1.67 ↗ alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related › DUF5518 0.72 50.0 4.60e-01 72.7% 79.8%
3564116 109.24.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Helical domain in dedicator of cytokinesis protein 9 › Helical domain in dedicator of cytokinesis protein 9 › DHR-2_Lobe_A 0.69 53.0 3.89e-01 97.4% 31.8%
3703063 604.3.1.0 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain 0.66 58.0 5.42e-01 97.4% 91.6%
4976483 131.1.1.10 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_3 0.66 57.0 4.23e-01 94.8% 82.1%
1019380 604.5.1.2 ↗ alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PhoU 0.66 58.0 5.21e-01 97.4% 83.3%
3375600 604.3.1.1 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › BAG 0.66 59.0 5.61e-01 97.4% 87.8%
1693420 604.31.1.1 ↗ alpha bundles › Spectrin repeat-like › F-actin-bundling protein ABP34 C-terminal domain › F-actin-bundling protein ABP34 C-terminal domain › F_actin_bund_C 0.65 57.0 5.12e-01 97.4% 95.2%
4646569 4994.1.1.1 ↗ alpha duplicates or obligate multimers › EF2458-like › EF2458-like › EF2458-like › DUF1507 0.65 58.0 5.38e-01 98.7% 83.2%
3530379 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.65 54.0 4.68e-01 89.6% 85.2%
3298054 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.65 55.0 4.70e-01 94.8% 68.0%
3253260 5069.1.3.4 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › CybS 0.64 47.0 4.20e-01 77.9% 56.0%
3410900 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.63 56.0 4.51e-01 97.4% 61.4%
None — 0.63 55.0 4.08e-01 100.0% 43.5%
5074225 604.5.1.0 ↗ alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) 0.62 54.0 5.10e-01 93.5% 87.8%
4027582 603.1.1.120 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › DUF846 0.62 53.0 4.62e-01 97.4% 85.0%
3904075 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.62 55.0 4.87e-01 98.7% 90.0%
4554416 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.61 46.0 4.39e-01 80.5% 70.0%
3484929 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.61 52.0 4.77e-01 94.8% 91.0%
3306390 604.9.1.1 ↗ alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 › Ribosomal_S20p 0.60 52.0 4.76e-01 98.7% 75.2%
3390957 5069.1.3.4 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › CybS 0.60 43.0 3.87e-01 76.6% 61.8%
None — 0.60 51.0 5.19e-01 98.7% 98.7%
3171100 603.1.1.100 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › PF27017 0.58 50.0 4.67e-01 98.7% 91.0%
3737296 192.2.1.18 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › ING 0.58 41.0 3.49e-01 81.8% 44.6%
4393454 632.15.1.6 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) › DUF2678 0.56 42.0 3.89e-01 80.5% 63.0%
3547209 192.15.1.204 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › DUF2678 0.56 42.0 3.87e-01 80.5% 63.0%
3965294 3558.1.1.0 ↗ alpha arrays › HSDR subunit helical domain › HSDR subunit helical domain › HSDR subunit helical domain 0.54 44.0 4.06e-01 85.7% 76.8%
4999419 7516.1.1.2 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.52 45.0 3.15e-01 100.0% 52.9%
3838954 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.51 43.0 3.93e-01 97.4% 82.7%
D2 high residues 113-173
PDB
Domain cluster: rep: HC-Pro_protein__YP_006405405__Basella_rugose_mosaic_virus__373398__D110-165
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00851.25 best Peptidase_C6 33.6 3.10e-08 100.0% 13.6%
D3 high residues 269-457
PDB
Domain cluster: rep: HC-Pro_protein__YP_006590094__Chinese_yam_necrotic_mosaic_virus__128818__D95-261
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00851.25 best Peptidase_C6 236.6 8.00e-70 99.5% 41.6%